From a5382ff6efb27a2478b96603775c758192b47ad9 Mon Sep 17 00:00:00 2001
From: ScheidTo <tobscheid@web.de>
Date: Mon, 13 May 2024 11:21:15 +0200
Subject: [PATCH] modified axis labelling

---
 docs/rnaseq_normalization.ipynb | 48 +++++++++++++++++++++++----------
 1 file changed, 34 insertions(+), 14 deletions(-)

diff --git a/docs/rnaseq_normalization.ipynb b/docs/rnaseq_normalization.ipynb
index 45a4abdc..e532399f 100644
--- a/docs/rnaseq_normalization.ipynb
+++ b/docs/rnaseq_normalization.ipynb
@@ -2,7 +2,7 @@
  "cells": [
   {
    "cell_type": "code",
-   "execution_count": 1,
+   "execution_count": 2,
    "metadata": {
     "dotnet_interactive": {
      "language": "fsharp"
@@ -78,7 +78,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 2,
+   "execution_count": 3,
    "metadata": {
     "dotnet_interactive": {
      "language": "fsharp"
@@ -103,7 +103,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 3,
+   "execution_count": 4,
    "metadata": {
     "dotnet_interactive": {
      "language": "fsharp"
@@ -140,7 +140,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 4,
+   "execution_count": 5,
    "metadata": {
     "dotnet_interactive": {
      "language": "fsharp"
@@ -169,7 +169,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 7,
+   "execution_count": 27,
    "metadata": {
     "dotnet_interactive": {
      "language": "fsharp"
@@ -185,14 +185,14 @@
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1.0)\"}}],\"choropleth\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"},\"colorscale\":[[0.0,\"#0d0887\"],[0.1111111111111111,\"#46039f\"],[0.2222222222222222,\"#7201a8\"],[0.3333333333333333,\"#9c179e\"],[0.4444444444444444,\"#bd3786\"],[0.5555555555555556,\"#d8576b\"],[0.6666666666666666,\"#ed7953\"],[0.7777777777777778,\"#fb9f3a\"],[0.8888888888888888,\"#fdca26\"],[1.0,\"#f0f921\"]]}],\"contour\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"},\"colorscale\":[[0.0,\"#0d0887\"],[0.1111111111111111,\"#46039f\"],[0.2222222222222222,\"#7201a8\"],[0.3333333333333333,\"#9c179e\"],[0.4444444444444444,\"#bd3786\"],[0.5555555555555556,\"#d8576b\"],[0.6666666666666666,\"#ed7953\"],[0.7777777777777778,\"#fb9f3a\"],[0.8888888888888888,\"#fdca26\"],[1.0,\"#f0f921\"]]}],\"contourcarpet\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}],\"heatmap\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"},\"colorscale\":[[0.0,\"#0d0887\"],[0.1111111111111111,\"#46039f\"],[0.2222222222222222,\"#7201a8\"],[0.3333333333333333,\"#9c179e\"],[0.4444444444444444,\"#bd3786\"],[0.5555555555555556,\"#d8576b\"],[0.6666666666666666,\"#ed7953\"],[0.7777777777777778,\"#fb9f3a\"],[0.8888888888888888,\"#fdca26\"],[1.0,\"#f0f921\"]]}],\"heatmapgl\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"},\"colorscale\":[[0.0,\"#0d0887\"],[0.1111111111111111,\"#46039f\"],[0.2222222222222222,\"#7201a8\"],[0.3333333333333333,\"#9c179e\"],[0.4444444444444444,\"#bd3786\"],[0.5555555555555556,\"#d8576b\"],[0.6666666666666666,\"#ed7953\"],[0.7777777777777778,\"#fb9f3a\"],[0.8888888888888888,\"#fdca26\"],[1.0,\"#f0f921\"]]}],\"histogram\":[{\"marker\":{\"pattern\":{\"fillmode\":\"overlay\",\"size\":10,\"solidity\":0.2}}}],\"histogram2d\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"},\"colorscale\":[[0.0,\"#0d0887\"],[0.1111111111111111,\"#46039f\"],[0.2222222222222222,\"#7201a8\"],[0.3333333333333333,\"#9c179e\"],[0.4444444444444444,\"#bd3786\"],[0.5555555555555556,\"#d8576b\"],[0.6666666666666666,\"#ed7953\"],[0.7777777777777778,\"#fb9f3a\"],[0.8888888888888888,\"#fdca26\"],[1.0,\"#f0f921\"]]}],\"histogram2dcontour\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"},\"colorscale\":[[0.0,\"#0d0887\"],[0.1111111111111111,\"#46039f\"],[0.2222222222222222,\"#7201a8\"],[0.3333333333333333,\"#9c179e\"],[0.4444444444444444,\"#bd3786\"],[0.5555555555555556,\"#d8576b\"],[0.6666666666666666,\"#ed7953\"],[0.7777777777777778,\"#fb9f3a\"],[0.8888888888888888,\"#fdca26\"],[1.0,\"#f0f921\"]]}],\"mesh3d\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}],\"parcoords\":[{\"line\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"pie\":[{\"automargin\":true}],\"scatter\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"scatter3d\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}},\"line\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"scattercarpet\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"scattergeo\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"scattergl\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"scattermapbox\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"scatterpolar\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"scatterpolargl\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"scatterternary\":[{\"marker\":{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"}}}],\"surface\":[{\"colorbar\":{\"outlinewidth\":0.0,\"ticks\":\"\"},\"colorscale\":[[0.0,\"#0d0887\"],[0.1111111111111111,\"#46039f\"],[0.2222222222222222,\"#7201a8\"],[0.3333333333333333,\"#9c179e\"],[0.4444444444444444,\"#bd3786\"],[0.5555555555555556,\"#d8576b\"],[0.6666666666666666,\"#ed7953\"],[0.7777777777777778,\"#fb9f3a\"],[0.8888888888888888,\"#fdca26\"],[1.0,\"#f0f921\"]]}],\"table\":[{\"cells\":{\"fill\":{\"color\":\"rgba(235, 240, 248, 1.0)\"},\"line\":{\"color\":\"rgba(255, 255, 255, 1.0)\"}},\"header\":{\"fill\":{\"color\":\"rgba(200, 212, 227, 1.0)\"},\"line\":{\"color\":\"rgba(255, 255, 255, 1.0)\"}}}]}},\"yaxis\":{\"title\":{\"text\":\"gene Length\",\"standoff\":2},\"range\":[0.0,1800.0]},\"xaxis\":{\"title\":{\"text\":\"gene ID\"}},\"xaxis2\":{\"title\":{\"text\":\"gene ID\"}},\"yaxis2\":{\"title\":{\"text\":\"Read Counts\",\"standoff\":2},\"range\":[0.0,200.0]},\"xaxis3\":{\"title\":{\"text\":\"gene ID\"}},\"yaxis3\":{\"title\":{\"text\":\"Read Counts\",\"standoff\":2},\"range\":[0.0,260000.0]},\"xaxis4\":{\"title\":{\"text\":\"gene ID\"}},\"yaxis4\":{\"title\":{\"text\":\"Read Counts\",\"standoff\":2},\"range\":[0.0,260000.0]},\"grid\":{\"rows\":1,\"columns\":4,\"pattern\":\"independent\",\"xgap\":0.35}};\n",
        "        var config = {\"responsive\":true};\n",
-       "        Plotly.newPlot('8ebe1332-f707-448e-b741-a309ed3bbbf7', data, layout, config);\n",
+       "        Plotly.newPlot('c442291c-4a24-43cf-8cbb-ee9442e1875b', data, layout, config);\n",
        "    });\n",
        "};\n",
        "if ((typeof(requirejs) !==  typeof(Function)) || (typeof(requirejs.config) !== typeof(Function))) {\n",
@@ -200,12 +200,12 @@
        "    script.setAttribute(\"charset\", \"utf-8\");\n",
        "    script.setAttribute(\"src\", \"https://cdnjs.cloudflare.com/ajax/libs/require.js/2.3.6/require.min.js\");\n",
        "    script.onload = function(){\n",
-       "        renderPlotly_8ebe1332f707448eb741a309ed3bbbf7();\n",
+       "        renderPlotly_c442291c4a2443cf8cbbee9442e1875b();\n",
        "    };\n",
        "    document.getElementsByTagName(\"head\")[0].appendChild(script);\n",
        "}\n",
        "else {\n",
-       "    renderPlotly_8ebe1332f707448eb741a309ed3bbbf7();\n",
+       "    renderPlotly_c442291c4a2443cf8cbbee9442e1875b();\n",
        "}\n",
        "</script></div>"
       ]
@@ -239,13 +239,17 @@
     "        tpmData\n",
     "        |> Seq.map (fun tpmData -> tpmData.GeneID)\n",
     "    let chartlist= [ Chart.Column(values = rawDataLength, Keys = rawDataKeys, Name = \"Gene Length\") |> Chart.withYAxisStyle(MinMax = (0., 1800.))\n",
+    "                     |> Chart.withXAxisStyle(TitleText = \"gene ID\") |> Chart.withYAxisStyle(TitleText = \"gene Length\", TitleStandoff = 2)\n",
     "                     Chart.Column(values = rawDataCounts, Keys = rawDataKeys, Name = \"raw data counts\") |> Chart.withYAxisStyle(MinMax = (0.,200.))\n",
-    "                     Chart.Column(values = rpkmDataCounts, Keys = rpkmDataKeys, Name = \"RPKM\") |> Chart.withXAxisStyle(TitleText = \"gene ID\") |> Chart.withYAxisStyle(MinMax = (0.,260000.))\n",
+    "                     |> Chart.withXAxisStyle(TitleText = \"gene ID\") |> Chart.withYAxisStyle(TitleText = \"Read Counts\", TitleStandoff = 2)\n",
+    "                     Chart.Column(values = rpkmDataCounts, Keys = rpkmDataKeys, Name = \"RPKM\") |> Chart.withXAxisStyle(TitleText = \"gene ID\") \n",
+    "                     |> Chart.withYAxisStyle(MinMax = (0.,260000.)) |> Chart.withYAxisStyle(TitleText = \"Read Counts\", TitleStandoff = 2)\n",
     "                     Chart.Column(values = tpmDataCounts, Keys = tpmDataKeys, Name = \"TPM\") |> Chart.withYAxisStyle(MinMax = (0.,260000.))\n",
+    "                     |> Chart.withXAxisStyle(TitleText = \"gene ID\") |> Chart.withYAxisStyle(TitleText = \"Read Counts\", TitleStandoff = 2)\n",
     "                     ]\n",
     "    chartlist\n",
-    "dataChart |> Chart.Grid(nRows = 1, nCols = 4)\n",
-    "|> Chart.withYAxisStyle \"Read Counts\""
+    "dataChart |> Chart.Grid(nRows = 1, nCols = 4, XGap = 0.35)\n",
+    "|> Chart.withSize (1000)"
    ]
   },
   {
@@ -264,8 +268,24 @@
   }
  ],
  "metadata": {
+  "kernelspec": {
+   "display_name": ".NET (C#)",
+   "language": "C#",
+   "name": ".net-csharp"
+  },
   "language_info": {
    "name": "csharp"
+  },
+  "polyglot_notebook": {
+   "kernelInfo": {
+    "defaultKernelName": "csharp",
+    "items": [
+     {
+      "aliases": [],
+      "name": "csharp"
+     }
+    ]
+   }
   }
  },
  "nbformat": 4,